genome.fa.s57.2.7.7.80.10.50.1000.11.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: Scaffold57
Parameters: 2 7 7 80 10 50 1000
Length:  4071704

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   

This is table  11  of  27  ( 3137 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1411252--1411282	14	2.1	15	94	5	55	58	0	0	41	0.98
1411238--1411277	19	2.0	20	95	4	73	60	0	0	40	0.97
1411938--1411974	2	19.0	2	94	5	67	0	48	0	51	1.00
1412133--1412187	27	2.0	27	92	0	92	32	18	3	45	1.67
1412827--1412851	2	12.5	2	100	0	50	52	0	0	48	1.00
1415701--1415736	2	18.5	2	88	5	56	50	2	0	47	1.15
1416563--1416592	15	1.9	16	93	6	53	90	0	10	0	0.47
1418161--1418213	20	2.7	20	85	11	74	47	0	1	50	1.12
1418455--1418506	16	3.5	15	82	10	63	50	1	0	48	1.12
1418922--1418995	16	4.9	15	73	12	53	35	0	9	55	1.32
1419313--1419370	27	2.2	26	81	12	64	37	8	3	50	1.50
1419735--1419802	29	2.2	32	79	10	79	33	0	2	63	1.10
1420317--1420345	2	14.5	2	100	0	58	48	0	0	51	1.00
1420374--1420418	21	2.2	21	84	11	58	2	20	4	73	1.11
1420805--1420880	28	2.5	31	80	16	81	50	0	0	50	1.00
1420835--1420883	12	4.3	12	75	15	50	51	0	0	48	1.00
1423452--1423499	7	6.9	7	78	7	53	45	0	4	50	1.21
1423664--1423702	3	13.3	3	84	15	55	35	0	0	64	0.94
1423664--1423703	11	3.7	11	86	6	64	37	0	0	62	0.95
1423696--1423757	18	3.6	18	70	24	60	33	3	3	59	1.29
1423702--1423752	16	3.1	16	72	16	50	31	3	3	60	1.33
1425599--1425623	13	1.9	13	100	0	50	28	0	0	72	0.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1428892--1428926	16	2.2	16	89	0	52	54	0	0	45	0.99
1429926--1429952	2	13.5	2	100	0	54	51	0	0	48	1.00
1430536--1430582	17	2.7	17	78	15	60	53	0	0	46	1.00
1430768--1430823	24	2.3	25	81	3	69	50	1	0	48	1.11
1430780--1430826	25	2.0	24	87	8	69	51	2	0	46	1.13
1430927--1430983	20	2.9	20	92	2	98	45	8	0	45	1.34
1431274--1431371	50	1.9	51	91	2	162	42	4	4	48	1.40
1432005--1432039	14	2.5	14	85	0	52	60	0	2	37	1.12
1432579--1432806	62	3.8	59	82	8	248	37	10	8	43	1.70
1432579--1432820	121	2.0	119	81	7	285	36	10	9	43	1.71
1433691--1433724	2	17.0	2	100	0	68	50	0	50	0	1.00
1434417--1434443	2	13.5	2	100	0	54	48	0	0	51	1.00
1434984--1435017	17	1.9	18	88	5	52	41	0	2	55	1.15
1434970--1435026	19	2.9	19	75	20	55	49	1	1	47	1.22
1443054--1443081	4	7.0	4	100	0	56	75	0	0	25	0.81
1443679--1443724	17	2.6	17	86	3	65	30	0	0	69	0.89
1444287--1444382	35	2.7	36	76	10	99	39	1	5	54	1.30
1444292--1444431	72	1.9	74	81	14	173	37	1	4	57	1.27
1456579--1456625	21	2.2	20	88	7	67	51	2	0	46	1.13
1457266--1457360	32	2.9	32	85	1	118	51	6	1	41	1.34
1458065--1458123	31	1.9	31	85	0	82	42	5	3	49	1.41
1458077--1458155	31	2.5	31	83	6	88	40	7	1	50	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1458597--1458645	2	25.5	2	87	8	75	48	0	0	51	1.00
1458894--1458935	12	3.4	12	86	3	57	59	4	2	33	1.31
1459498--1459530	11	3.1	11	82	8	50	39	0	0	60	0.97
1459835--1459872	2	19.0	2	100	0	76	50	0	0	50	1.00
1460025--1460049	7	3.6	7	100	0	50	32	0	56	12	1.36
1461220--1461246	2	13.5	2	100	0	54	51	0	0	48	1.00
1462439--1462480	20	2.2	19	91	4	66	52	0	0	47	1.00
1462443--1462494	27	2.0	26	85	11	70	51	0	0	48	1.00
1462683--1462713	2	15.5	2	100	0	62	51	0	0	48	1.00
1463717--1463748	3	11.0	3	93	6	57	65	0	0	34	0.93
1464360--1464394	11	2.9	12	87	12	54	31	0	0	68	0.90
1466968--1466997	3	10.0	3	100	0	60	66	0	33	0	0.92
1469472--1469505	15	2.4	15	90	9	54	26	14	20	38	1.91
1470550--1470949	198	2.0	200	89	4	621	40	9	10	39	1.73
1472191--1472229	19	2.1	19	85	0	51	69	5	0	25	1.09
1472308--1472343	17	2.1	17	94	0	63	44	5	5	44	1.50
1473094--1473140	2	24.0	2	91	4	78	46	0	0	53	1.00
1473503--1473565	18	3.8	15	71	20	54	39	0	3	57	1.15
1473546--1473584	19	2.1	19	85	0	51	30	0	7	61	1.24
1473608--1473654	23	2.0	24	87	4	69	51	0	0	48	1.00
1473615--1473645	12	2.5	13	94	5	55	51	0	0	48	1.00
1475071--1475114	22	2.0	23	86	4	63	54	0	0	45	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1475322--1475352	1	31.0	1	93	0	53	0	96	3	0	0.21
1478829--1478900	31	2.4	29	81	9	81	50	1	1	47	1.18
1478866--1478899	17	1.9	18	88	5	52	47	0	0	52	1.00
1478875--1478989	21	5.3	22	71	20	82	53	2	0	44	1.14
1478905--1478998	37	2.5	38	84	6	111	55	3	0	41	1.16
1478870--1479000	15	8.1	16	74	16	83	54	2	0	43	1.13
1481223--1481267	19	2.4	19	92	7	74	48	0	0	51	1.00
1481264--1481304	21	2.0	20	86	13	57	60	0	0	39	0.96
1482789--1482842	28	1.9	28	85	7	74	33	0	3	62	1.12
1483083--1483130	21	2.3	22	78	10	55	58	0	0	41	0.98
1483421--1483525	5	22.4	5	72	20	61	59	0	0	40	0.98
1483421--1483525	14	7.5	15	70	23	61	59	0	0	40	0.98
1483421--1483559	18	8.0	18	70	19	66	57	0	0	42	0.98
1483420--1483566	13	11.4	13	68	21	78	57	0	0	42	0.98
1483456--1483568	18	6.3	18	72	12	90	54	0	0	45	0.99
1483897--1483927	6	5.2	6	96	0	53	0	12	54	32	1.38
1485223--1485253	15	2.1	15	93	0	53	61	0	0	38	0.96
1485637--1485665	2	15.0	2	92	7	51	48	0	0	51	1.00
1487217--1487246	14	2.1	15	93	6	53	56	0	0	43	0.99
1488401--1488429	2	14.5	2	100	0	58	48	0	0	51	1.00
1489017--1489059	22	2.0	22	90	9	70	39	0	0	60	0.97
1493356--1493409	24	2.2	24	77	6	56	61	3	0	35	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1501509--1501546	16	2.5	16	87	8	53	42	0	2	55	1.14
1501621--1501670	15	3.3	15	77	5	55	64	0	0	36	0.94
1503832--1503883	26	2.0	26	85	7	70	42	0	0	57	0.98
1504291--1504329	14	2.7	14	84	4	51	46	0	10	43	1.37
1504333--1504402	22	3.1	23	82	12	83	38	1	0	60	1.06
1504333--1504400	28	2.6	25	80	15	75	38	1	0	60	1.06
1504748--1504792	17	2.8	16	80	9	56	53	2	0	44	1.13
1505750--1505794	20	2.2	20	84	7	56	55	2	0	42	1.12
1505780--1505828	21	2.5	20	87	12	66	65	0	0	34	0.93
1505799--1505823	11	2.3	11	100	0	50	64	0	0	36	0.94
1506103--1506128	3	8.7	3	100	0	52	34	0	0	65	0.93
1506180--1506223	18	2.6	17	80	13	56	72	0	0	27	0.85
1506178--1506223	16	2.8	16	78	15	58	71	0	0	28	0.86
1506538--1506577	17	2.3	17	95	4	71	22	12	42	22	1.87
1508867--1508920	21	2.5	22	85	5	76	51	0	0	48	1.00
1514049--1514156	27	4.0	27	67	23	75	52	0	0	46	1.06
1514537--1514605	5	13.4	5	74	17	52	46	0	0	53	1.00
1515307--1515347	20	2.0	21	85	4	57	51	0	2	46	1.14
1515254--1515453	61	3.3	57	72	20	165	44	0	1	54	1.10
1515508--1515549	18	2.1	21	87	12	63	69	0	0	30	0.89
1518876--1518917	2	21.0	2	100	0	84	50	0	0	50	1.00
1519288--1519339	20	2.7	19	82	11	61	48	1	0	50	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1521743--1521899	78	2.0	78	92	0	260	47	13	15	23	1.81
1525582--1525613	2	16.0	2	100	0	64	50	0	0	50	1.00
1526366--1526416	22	2.4	20	81	18	59	80	0	13	5	0.89
1526735--1526776	15	2.8	15	89	7	59	7	14	2	76	1.10
1526735--1526777	14	3.0	13	81	18	50	6	16	2	74	1.14
1526985--1527017	2	16.5	2	100	0	66	51	0	0	48	1.00
1527978--1528013	2	18.0	2	100	0	72	0	50	0	50	1.00
1534826--1534865	18	2.2	18	86	8	55	65	0	2	32	1.06
1534881--1534940	10	6.4	9	77	9	50	53	0	0	46	1.00
1534887--1534950	20	3.3	19	74	20	60	53	0	0	46	1.00

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27